Three EOSC-Life Training Open Calls were issued from 2020-2023, and a total of 15 projects received funding.
These training activities and their sustainable outcomes are described below.
The webinar and tutorial series was developed to raise awareness in researchers, clinicians, and technicians who produce data and develop or use software related to COVID-19 in order to emphasize the outstanding importance of sharing data and software rapidly and openly.
Lead organisations: ELIXIR, RDA
Read the associated EOSC-Life news story.
Open Life Science (OLS) is a 16-week long personal mentorship and cohort-based training for individuals who would like to develop and lead Open Research projects in their communities. In each cohort, the participants of this programme will:
Lead organisations: ELIXIR, Open Life Science
Read the associated EOSC-Life news story and success story
This course was designed for field ecologists, environmental scientists, climate modellers, and biologists who are interested in improving climate models by more effectively representing terrestrial ecosystems. FATES is a numerical terrestrial ecosystem model for use in Earth System Models (ESM) that simulates and predicts growth, death, and regeneration of plants and subsequent tree size distributions.
In this course, participants learn about climate modelling as well as how to use the Galaxy Climate JupyterLab to run FATES experiments and compare these with observational data.
Lead organisations: University of Freiburg, University of Oslo
Training materials available via the Galaxy Training Network:
Read the associated EOSC-Life news story and original course description.
This course was designed anyone with an analytical mindset who was interested in modelling the coronavirus pandemic in useful and meaningful ways. The course enabled participants to make predictions using a pre-existing systems biology model. They can then use these to pose “what-if” questions on a variety of issues, such as alternative governmental intervention strategies, the effects of masking, and accelerated testing and vaccination, in various phases of the pandemic.
Lead organisations: ISBE.NL, ELIXIR-Luxembourg, Luxembourg University
Read the associated EOSC-Life news story and original course programme.
This one-day long virtual workshop brought together 124 participants from a variety of different Research Infrastructures from the life sciences and beyond to discuss challenges and share their experiences regarding the development of remote access and remote user training.
Lead organisations: Euro-BioImaging ERIC, Instruct-ERIC
Sustainable outcomes:
The content of the workshop, the recordings of plenary sessions, discussion summaries, and presentation slides were also made available to the participants after the event and can be made available within the EOSC-Life consortium upon request. Contact the organisers if you wish to get access.
Read the associated EOSC-Life news story and original course programme.
This training school (Defragmentation TS1) organised by the Network of European Bioimage Analysts (NEUBIAS Academy) and EOSC-Life took place in September and October 2022. The organisation committee selected 25 trainees from all over the world who wanted to learn state-of-the-art methods for bioimage analysis that use cloud infrastructures. The programme included lectures and F2F sessions over a period of 5 weeks.
Lead organisations: Network of European Bioimage Analysts (NEUBIAS Academy), Francis Crick Institute
Read the associated EOSC-Life success story.
TIaaS allows trainees’ jobs to be run preferentially and avoids long execution times, depending on the server load. By providing access to this service, the Galaxy Training Network ensured that TIaaS would be freely available to anyone and facilitated access to an extensive catalogue of FAIR training materials. This project helped support access to TIaas.
The successful outcome? To date, since TIaaS training has been offered, more than 350 training events have been offered and more than 14,300 students have been trained!
Lead organisations: University of Freiburg
Read the associated EOSC-Life success story.
This project enabled the Galaxy Admin community to host a workshop on 25-29 January 2021 which covered introductory and advanced topics participants needed to know to set up their own production, high-performance, and multi-user Galaxy instances.
59 participants from across 5 continents took part in the training, including 6 from the EOSC-Life community. Participants learnt about how to install, configure, customise, and extend their own production-ready Galaxy servers.
Lead organisations: Erasmus MC, University of Freiburg
Read the associated EOSC-Life news story.
Lead organisation: EATRIS
Read the associated EOSC-Life news story.
This project aims to increase participants’ open research skills to increase the quality and reusability of phytolith research and research in related disciplines (e.g. archaeology, palaeosciences, and the plant sciences).
Six (6) hands-on workshops will be run on open access publishing and research outputs, using repositories, ontologies, and standard vocabularies, implementation of FAIR Guidelines for phytolith research, and two (2) workshops on Github basic and advanced skills. The materials from all workshops will be archived as self-study courses on the website. Translation will also be provided during workshops, and training materials will be translated into multiple languages.
Learn more about the FAIR Phytoliths project website and the FAIR Phytoliths Github website.
Read the associated EOSC-Life news story.
This project provides a training course that will be focused on the technical and legal aspects on sharing biomedical data, in particular on how to make biomedical data FAIR.
The course hosted at ISS will be composed of 3 sessions each lasting 2 days: (i) an introduction into Research Data Management Topics like the EOSC principles, Research Data Management policies, GDPR, research integrity and data sharing aspects, (ii) the importance of FAIR Data Principles in Healthcare & Life Sciences, (iii) working group “Hands-on” activity aimed to demonstrate the potential and practical implications of FAIR in practice.
Lead organisation: Istituto Superiore di Sanità (ISS)
Supporting organisations: ECRIN, BBMRI (ELSI aspects), and ELIXIR-IT (training expertise)
Read the associated EOSC-Life news story.
This project provides support for a training school organised by NEUBIAS Academy and EOSC-Life, which will be held on 8-12th May 2023 in Porto, Portugal.
This course provides a new generation of bioimage analysts with training on workflow-based image analysis and new integrated methods for cloud computing that can be applied in the life sciences. The course is built around the four pillars of bioimage analysis: components, workflows, infrastructures, and benchmarking; high-computing and/or cloud computing platforms will be used to teach the participants how to conduct analyses that require intensive computational power and tools.
Lead organisation: NEUBIAS Academy
Read the associated EOSC-Life news story.
This project will develop the contents and deliver one (1) course (hybrid format) to teach participants (future trainers) how to introduce a sex and gender perspective into life science projects and broaden their technical knowledge and skills in the area of sex and gender biases in life sciences research, being exposed to different realities in European institutions.
The course will use a train-the-trainer format, and the materials created will be made available free of cost to the scientific community. The training will provide methodological tools and case studies, illustrating a successful sex and gender integration into key research and innovation areas.
Lead organisation: BSC
See the related toolkit for gender equality in academia and research from the EIGE
Read the associated EOSC-Life news story.
In this project, multiple single-cell analysis workflows were built by using the freely accessible and user-friendly Galaxy project interface. Accompanying training materials were created to walk users through this analysis on the interactive Galaxy training platform.
Specifically, Julia Jakiela (University of Edinburgh; supervised by Wendi Bacon, The Open University) built and documented these multiple workflows to expand the open access Galaxy single-cell tutorial suite, creating the first Jupyter Notebook tutorials in the Galaxy environment. Parameter iteration workflows and tutorials and trajectory analysis tools were also created, responding to user needs. The former allow users to test numerous parameters simultaneously. Workflow testing and updates were also added to improve sustainability and best practices across numerous tutorials.
These tutorials allow users (also non-programmers) to perform multi-language analysis (i.e. using either Seurat/R-based functions or Scanpy/Python-based functions) and batch correction comparisons to ensure usability and accurate application. The resources provided will help bench biologists and clinicians analyse single-cell data more effectively even if they lack programming skills.
Jakiela delivered these tutorials at an EBI single cell course in early 2023 at the global free Galaxy Smörgasbord (which had over 2000 participants). She also presented on her work (and demonstrated the workflows) at the Galaxy Community Conference in Brisbane, Australia.
EOSC-Life funding made it possible to create and deliver these training resources, and also allow Jakiela (an undergraduate student at time the work was completed) to benefit significantly from networking within the Galaxy community.
Lead organisation: The Open University
Read the associated EOSC-Life news story.
This training project generated two (2) e-learning courses on “Fundamentals of Responsible Research”, one designed for biomedical PhD students and one for professionals, in translational research. This type of research is carried out to translate research ideas into medical benefits for patients and society, which requires the involvement of many disciplines and scientific approaches. Since human health is involved, the research needs to be carried out responsibly and reproducibly.
This project collected existing e-learning materials on responsible and translational research (including proper experimental design, statistical analysis, methodological transparency and ethical research), adapted, and packaged them to address the specific training needs of PhD students and professionals, respectively.
Lead organisation: EATRIS
Read the associated EOSC-Life news story.
These calls were opened to provide training on topics relevant to EOSC-Life. Proposals could be submitted for funding to support the following activities (not mutually exclusive).
Eligible topics included:
For more information about training activities carried out in EOSC-Life, see Deliverable 9.1.